genome.fa.s4.2.7.7.80.10.50.1000.156.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: At_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  78745976

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   

This is table  156  of  235  ( 28198 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52558510--52558720	39	5.3	40	79	10	157	27	27	20	24	1.99
52558527--52558733	40	5.2	40	82	8	235	27	28	20	24	1.99
52558554--52558727	79	2.2	81	83	7	221	25	28	21	24	1.99
52566734--52566926	40	4.8	40	81	7	196	26	27	20	24	1.99
52566769--52566926	79	2.0	81	83	5	205	27	27	20	24	1.99
52572313--52572522	28	7.5	28	94	0	341	26	12	28	32	1.92
52575990--52576111	22	5.3	22	61	18	59	25	28	11	34	1.91
52575962--52576271	47	6.3	47	83	10	363	27	29	9	33	1.88
52576077--52576174	33	3.2	33	61	21	84	26	30	9	33	1.88
52575983--52576265	154	1.8	154	92	1	478	26	30	10	32	1.89
52576031--52576230	107	1.9	107	95	0	364	26	29	10	33	1.90
52576569--52576630	31	2.0	31	90	0	97	41	29	8	20	1.81
52579268--52579385	39	2.9	39	79	3	128	35	17	26	20	1.95
52580551--52580588	6	6.7	6	91	8	62	71	0	0	28	0.87
52581468--52581527	30	2.0	30	83	6	77	38	6	26	28	1.81
52582182--52582420	49	4.8	50	77	4	232	26	18	25	28	1.98
52587226--52587285	30	2.0	30	83	6	77	38	6	26	28	1.81
52605878--52605942	28	2.3	28	91	0	103	32	27	7	32	1.85
52606048--52606110	28	2.2	29	86	8	85	22	19	23	34	1.96
52606061--52606121	29	2.1	28	85	8	79	26	21	18	34	1.96
52613696--52613760	28	2.3	28	86	0	85	30	26	9	33	1.88
52613865--52613919	28	2.0	28	89	7	85	23	23	21	30	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52613875--52613938	28	2.2	28	83	2	74	25	26	18	29	1.98
52619247--52619316	28	2.5	28	84	9	90	27	14	28	30	1.95
52626756--52626800	19	2.3	20	80	7	56	44	0	8	46	1.34
52626820--52627000	87	2.1	87	97	1	344	35	1	5	56	1.32
52626886--52626932	23	2.1	22	88	4	67	38	2	2	57	1.23
52626958--52627008	12	4.2	12	80	9	50	39	0	1	58	1.09
52629370--52629506	60	2.3	60	82	11	165	28	17	26	27	1.98
52630137--52630169	18	1.9	17	88	11	50	42	12	15	30	1.83
52631455--52631498	19	2.4	19	85	7	56	50	0	9	40	1.34
52631571--52631621	12	4.2	12	80	9	50	39	0	1	58	1.09
52633961--52634095	60	2.2	60	80	6	148	28	17	26	28	1.97
52637102--52637308	46	4.5	47	75	8	160	28	18	28	23	1.98
52638610--52638649	21	2.0	21	85	5	55	15	40	25	20	1.90
52644866--52645135	141	1.9	138	83	7	348	27	19	27	24	1.99
52654637--52654785	27	5.5	27	74	10	108	30	14	26	28	1.95
52654657--52654815	81	2.0	80	80	3	176	29	15	26	28	1.96
52658717--52658789	29	2.5	29	88	0	110	28	10	27	32	1.91
52659821--52659873	27	2.0	27	100	0	106	32	7	11	49	1.67
52660673--52660757	27	3.1	27	93	0	125	32	16	16	34	1.91
52660862--52660900	18	2.2	18	86	9	53	23	38	23	15	1.92
52671790--52671846	8	7.4	8	75	15	57	36	1	1	59	1.18
52671779--52671855	26	3.0	25	73	15	68	36	1	1	61	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52677818--52677899	39	2.2	37	89	8	137	48	15	20	14	1.80
52681634--52681691	26	2.2	27	90	6	100	27	3	44	24	1.69
52688047--52688214	56	3.0	56	89	0	237	33	23	14	28	1.94
52689096--52689138	21	2.0	21	86	0	59	55	9	2	32	1.44
52696610--52696677	34	2.0	34	97	0	127	27	5	42	23	1.77
52705039--52705071	18	1.9	17	88	11	50	42	12	15	30	1.83
52706108--52706156	25	2.0	25	91	0	80	36	10	18	34	1.85
52708121--52708191	27	2.6	28	80	12	85	32	9	18	39	1.83
52708123--52708232	54	2.0	54	84	3	141	33	9	18	39	1.82
52708567--52708607	18	2.3	18	91	4	66	26	39	14	19	1.90
52713461--52713489	9	3.2	9	100	0	58	20	10	24	44	1.82
52719813--52720047	50	4.7	50	77	5	258	31	24	16	26	1.96
52719857--52720046	101	1.9	101	84	2	256	32	24	16	26	1.96
52720396--52720442	19	2.3	20	82	10	60	48	14	0	36	1.44
52720648--52720706	30	2.0	30	82	0	73	25	27	6	40	1.80
52722087--52722176	34	2.6	34	80	0	108	26	18	24	30	1.98
52724162--52724207	15	3.2	15	77	22	62	34	4	0	60	1.16
52724153--52724207	28	2.0	28	96	0	101	32	5	0	61	1.19
52724156--52724220	28	2.3	27	87	7	87	33	6	0	60	1.22
52725048--52725086	21	1.9	20	84	5	51	46	23	0	30	1.53
52729032--52729172	27	5.2	27	78	8	153	17	22	25	34	1.96
52729032--52729172	54	2.6	53	83	4	192	17	22	25	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52746664--52746745	43	1.9	43	85	5	112	30	31	15	21	1.95
52752763--52752806	17	2.5	18	82	14	56	52	0	2	45	1.13
52756946--52757074	55	2.3	55	81	0	168	22	34	23	19	1.96
52757834--52758153	47	6.8	46	72	13	210	23	29	20	27	1.99
52757834--52758154	94	3.4	92	72	10	274	23	28	20	27	1.99
52766690--52766912	40	5.6	40	86	3	245	24	20	27	26	1.99
52766765--52766947	79	2.3	80	82	1	226	25	20	27	25	1.99
52774638--52774860	40	5.6	40	87	3	254	25	20	27	26	1.99
52774712--52774895	79	2.3	80	82	3	221	26	20	27	25	1.99
52777338--52777443	40	2.7	40	80	2	124	22	16	27	33	1.95
52794145--52794201	9	5.8	10	80	15	66	36	10	19	33	1.86
52794152--52794218	20	3.3	20	89	4	82	37	10	19	32	1.86
52794268--52794375	24	4.4	25	88	8	150	28	19	23	28	1.98
52794586--52794676	38	2.7	31	76	22	103	34	17	24	24	1.96
52801453--52801508	27	2.1	28	93	6	98	48	14	8	28	1.74
52801542--52801794	77	3.2	78	83	5	289	43	12	10	33	1.77
52801579--52801807	77	2.9	77	86	3	316	45	12	11	30	1.78
52801529--52801807	78	3.6	78	83	3	330	43	12	11	32	1.78
52804229--52804416	49	3.8	49	84	2	259	27	18	25	28	1.98
52804224--52804414	100	1.9	100	95	0	346	27	19	25	28	1.99
52814513--52814633	41	2.8	43	79	9	122	30	23	17	28	1.97
52819388--52819443	28	1.9	30	82	7	71	50	21	0	28	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52824061--52824117	28	2.1	28	90	9	91	45	0	0	54	0.99
52829726--52830183	46	9.9	46	77	11	445	29	28	19	22	1.98
52829786--52830231	93	4.8	94	77	13	444	29	28	19	22	1.98
52829726--52830230	139	3.6	139	99	0	1001	29	28	19	23	1.98
52829733--52830251	93	5.6	94	75	13	359	29	27	19	23	1.98
52831697--52831741	19	2.4	19	88	7	65	0	20	0	80	0.72
52837849--52838190	37	9.1	37	89	2	506	35	24	21	17	1.95
52837849--52838190	112	3.0	111	89	3	524	35	24	21	17	1.95
52841479--52841533	27	2.0	27	86	6	76	47	3	0	49	1.19
52847065--52847158	32	2.8	32	75	13	84	27	25	20	26	1.99
52851700--52851741	21	2.0	21	100	0	84	33	23	19	23	1.97
52854617--52854839	112	2.0	112	95	0	401	37	25	17	19	1.94
52861269--52861363	48	2.0	48	91	0	154	31	14	21	32	1.93
52863273--52863389	58	2.0	59	89	1	182	33	16	11	39	1.84
52864523--52865140	40	15.5	40	92	3	989	26	26	22	24	2.00
52868195--52868294	50	2.0	50	92	0	164	29	14	22	35	1.93
52871521--52871698	40	4.5	40	87	4	229	25	25	23	25	2.00
52872206--52872308	54	1.9	54	97	0	197	36	15	7	39	1.76
52875165--52875258	32	2.8	32	75	13	84	27	25	20	26	1.99
52880661--52880705	22	2.1	21	84	12	56	64	4	2	28	1.25
52891854--52891974	55	2.2	56	79	10	133	23	21	31	23	1.98
52895042--52895113	25	2.9	25	82	0	90	23	23	22	30	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52898260--52898367	40	2.7	40	94	2	191	25	19	27	27	1.99
52902013--52902051	10	3.8	10	93	6	69	33	17	17	30	1.94
52902012--52902051	21	1.9	21	100	0	80	35	17	17	30	1.93
52902097--52902166	25	2.8	25	93	0	113	25	24	22	27	2.00
52902096--52902179	25	3.4	25	82	12	95	28	22	22	26	1.99
52909950--52909988	10	3.8	10	93	6	69	33	17	17	30	1.94
52909949--52909988	21	1.9	21	100	0	80	35	17	17	30	1.93
52910033--52910102	25	2.9	24	93	4	122	24	27	22	25	2.00
52910033--52910115	24	3.4	24	90	6	123	27	24	22	25	2.00
52910033--52910127	49	1.9	49	83	8	122	26	25	23	25	2.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235